Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 46 of 253
Found at i:12018660 original size:46 final size:46
Alignment explanation
Indices: 12018608--12018839 Score: 299
Period size: 46 Copynumber: 5.0 Consensus size: 46
12018598 GTGTGCTCTC
** *
12018608 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
12018654 TGATATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
12018700 TGACGA-GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGA-TATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
12018746 TGACT-TGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGA-TATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
12018792 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
12018838 TG
1 TG
12018840 TCAAAGATAA
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
45 1 0.01
46 163 0.99
47 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:12018771 original size:92 final size:92
Alignment explanation
Indices: 12018622--12018834 Score: 349
Period size: 92 Copynumber: 2.3 Consensus size: 92
12018612 ATGAAATGTG
*
12018622 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAACGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAAGAATAAGACCATGGTTGAAAGA
12018687 TACCATGGCAACATGAC-GAGAAATGAA
66 TACCATGGCAACATGACAGA-AAATGAA
12018714 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACT-TGAAAAGAATAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGA-TATGAAAAGAATAAGACCATGGTTGAAAG
*
12018778 ATACCATGGCAACATGACAGAAAATGAG
65 ATACCATGGCAACATGACAGAAAATGAA
* * *
12018806 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
12018835 TCATGTCAAA
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
92 111 0.97
93 3 0.03
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.19
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAAGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGAAAATGAA
Found at i:12030361 original size:14 final size:15
Alignment explanation
Indices: 12030325--12030361 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
12030315 TTTCTTTTAT
*
12030325 TTATTATAACTATTA
1 TTATTATATCTATTA
12030340 -TATTATATC-ATTA
1 TTATTATATCTATTA
12030353 TTATTATAT
1 TTATTATAT
12030362 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:12032466 original size:14 final size:15
Alignment explanation
Indices: 12032443--12032475 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12032433 AATATTACCC
*
12032443 TTATGGATATTTAT-
1 TTATGAATATTTATA
12032457 TTATGAATATTTATA
1 TTATGAATATTTATA
12032472 TTAT
1 TTAT
12032476 AATGTGTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (15 bp):
TTATGAATATTTATA
Found at i:12034121 original size:22 final size:23
Alignment explanation
Indices: 12034082--12034130 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
12034072 AGTATTTTCG
*
12034082 TTATTTTATTTCATTT-TAAATA
1 TTATTTGATTTCATTTATAAATA
12034104 TTATTTGATTATCATTTATAAATA
1 TTATTTGATT-TCATTTATAAATA
12034128 TTA
1 TTA
12034131 GTGTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.38
23 6 0.25
24 9 0.38
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATTTGATTTCATTTATAAATA
Found at i:12035059 original size:36 final size:35
Alignment explanation
Indices: 12035019--12035119 Score: 100
Period size: 36 Copynumber: 2.9 Consensus size: 35
12035009 TTATTTCATA
12035019 TATATATGTAAATATTATGTATATATTTTTAAATAC
1 TATATATGT-AATATTATGTATATATTTTTAAATAC
* * *
12035055 TATAT-TGT-ATATGTATATATATATTCTT-AGTAC
1 TATATATGTAATAT-TATGTATATATTTTTAAATAC
* *
12035088 TATATTACGTATATATTATGTATATATATTTA
1 TATA-TATGTA-ATATTATGTATATATTTTTA
12035120 TTTTTACCCC
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
33 12 0.23
34 14 0.27
35 5 0.10
36 17 0.33
37 4 0.08
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (35 bp):
TATATATGTAATATTATGTATATATTTTTAAATAC
Found at i:12047186 original size:73 final size:72
Alignment explanation
Indices: 12047067--12047252 Score: 257
Period size: 73 Copynumber: 2.5 Consensus size: 72
12047057 GCATTTAGGA
* *
12047067 CAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAACTG
1 CAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATG
12047132 CTGT-TTGT
66 CT-TCTT-T
** * *
12047140 CAAAAATCAACTCACGTTGCGGGAGGTGAGTTGAGCCTCTGGGCACGCCGAGGTATTTTCAAATT
1 CAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATG
12047205 CTTCTTT
66 CTTCTTT
*
12047212 CAGAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 C---AAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCT
12047253 TGGCTCGCGT
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
72 3 0.03
73 63 0.63
75 34 0.34
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (72 bp):
CAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATG
CTTCTTT
Found at i:12047383 original size:73 final size:72
Alignment explanation
Indices: 12047304--12047720 Score: 399
Period size: 73 Copynumber: 5.5 Consensus size: 72
12047294 CTGTTTTCTT
12047304 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTG
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT-CTG
12047369 TTTGTCAA
65 TTTGTCAA
* *
12047377 AAATCAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTA
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC-AATTCT-
* *
12047442 CTTTCAG-AAA
64 GTTT--GTCAA
* * ** * *
12047452 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG-TGTTGAGTCACTTTCAATTT
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTG-AG-GT-ATTTTCAA-TT
**
12047516 CTGTTTTTATGTCTGTTTTTTTT
62 CTG---TT-TGTC--------AA
* * *
12047539 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGAGGCACGCTGATGTATTTTCAATTGTTG
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT-CTG
12047604 TTTGTCAA
65 TTTGTCAA
* * * *
12047612 AAATCAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGTGGCACGCCGAGGTATTTTCAAATTCTA
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC-AATTCTG
*
12047677 CTT-TCAAAA
65 TTTGTC--AA
*
12047686 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCT
12047721 TGGCTCACGT
Statistics
Matches: 282, Mismatches: 36, Indels: 51
0.76 0.10 0.14
Matches are distributed among these distances:
72 2 0.01
73 113 0.40
74 47 0.17
75 42 0.15
76 5 0.02
77 9 0.03
78 1 0.00
79 2 0.01
80 1 0.00
81 4 0.01
82 2 0.01
84 2 0.01
85 9 0.03
86 2 0.01
87 39 0.14
88 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (72 bp):
AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTCTGT
TTGTCAA
Found at i:12047479 original size:234 final size:233
Alignment explanation
Indices: 12047070--12047915 Score: 1352
Period size: 234 Copynumber: 3.6 Consensus size: 233
12047060 TTTAGGACAA
*
12047070 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAACTGCTG
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTG
* *
12047135 TTTGTCAAAAATCAACTCACGTTGCGGGAGGTGAGTTGAGCCTCTGGGCACGCCGAGGTATTTTC
66 TTTGTCAAAAATCAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTC
* *
12047200 AAATTCTTCTTTCAGAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCGCGTGT
131 AAATTCTACTTTCAGAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGT
*
12047265 TGAGTCACTTTCAATTTCTATTTTTATGTCTGTTTTCTT
196 TGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTT-TT
12047304 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTG
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTG
12047369 TTTGTCAAAAATCAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTC
66 TTTGTCAAAAATCAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTC
12047434 AAATTCTACTTTCAGAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGT
131 AAATTCTACTTTCAGAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGT
12047499 TGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTTTTT
196 TGAGTCACTTTCAATTTCTGTTTTTATGTCTG--TTTTTT
* * *
12047539 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGAGGCACGCTGATGTATTTTCAATTGTTG
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTG
*
12047604 TTTGTCAAAAATCAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGTGGCACGCCGAGGTATTTTC
66 TTTGTCAAAAATCAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTC
12047669 AAATTCTACTTTCA-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGT
131 AAATTCTACTTTCAGAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGT
12047733 TGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTTT
196 TGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTTT
* ** *
12047771 AAATCAACTCATATTGCGGGAGGTGAGTTGACCCTCGGCTCACGTGTTGAGGTATTTTCAATTTC
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC--GCTGAGGTA---T---TTTC
* * * * * * * *
12047836 AATTTCTGTTTGTCAAAAAAACCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAGTCACATGT
58 AATTGCTGTTTGTC--AAAAATCAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGGGGCAC--GC
12047901 CGAGGTATTTTCAAA
119 CGAGGTATTTTCAAA
12047916 ATCTGTTTTT
Statistics
Matches: 573, Mismatches: 25, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
232 45 0.08
234 310 0.54
235 142 0.25
236 4 0.01
237 1 0.00
240 16 0.03
242 39 0.07
244 16 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (233 bp):
AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTG
TTTGTCAAAAATCAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTC
AAATTCTACTTTCAGAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGT
TGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTTT
Found at i:12047830 original size:85 final size:86
Alignment explanation
Indices: 12047685--12048156 Score: 386
Period size: 83 Copynumber: 5.4 Consensus size: 86
12047675 TACTTTCAAA
* *
12047685 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTTGA-GTCACTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGTTGAGGT-ATTTTCAATT
*
12047749 TCTGTTTTT-ATGTCTGTTTTT
65 TCTGTTTTTCATGTTTGTTTTT
* * *
12047770 TAAATCAACTCATATTGCGGGAGGTGAGTTGACCCTCGGCTCACGTGTTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGTTGAGGTATTTTCAATTT
** ****
12047835 C--AATTTC-TGTTTGTCAAA
66 CTGTTTTTCATGTTTGTTTTT
* * * * **
12047853 AAAACCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAG-TCACATGTCGAGGTATTTTCAAAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GCTCACGTGTTGAGGTATTTTCAATT
** *
12047917 TCTGTTTTTCAAATTAT-TTTTCA
65 TCTGTTTTTCATGTT-TGTTTT-T
* * * * * * * * * * * *
12047940 AAAACCAATTGATATTGCAAGAAGTGAATTGAGCCTTGGCTAATGTGATGAGCTACTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGTTGAGGTATTTTCAATTT
*
12048005 CTGTTTTTCAAT-TTTCGCTTTTCAAAA
66 CTGTTTTTC-ATGTTT-G-TTTT----T
* * *
12048032 AAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGTTGAGGTATTTTCAATTT
* *
12048097 ATGTTTTTTCAAT-TTATATTTTT
66 CTG-TTTTTC-ATGTT-TGTTTTT
12048120 CAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 -AAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCC
12048157 GTGGGTTCAC
Statistics
Matches: 304, Mismatches: 63, Indels: 35
0.76 0.16 0.09
Matches are distributed among these distances:
83 64 0.21
84 1 0.00
85 62 0.20
86 7 0.02
87 60 0.20
88 1 0.00
89 7 0.02
90 31 0.10
92 59 0.19
93 11 0.04
94 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (86 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGTTGAGGTATTTTCAATTT
CTGTTTTTCATGTTTGTTTTT
Found at i:12048065 original size:92 final size:90
Alignment explanation
Indices: 12047851--12048156 Score: 266
Period size: 87 Copynumber: 3.4 Consensus size: 90
12047841 CTGTTTGTCA
* * * *
12047851 AAAAAACCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAG-TCACATG-TCGAGGTATTTTCA
1 AAAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GCTAACATGAT-GAGCTACTTTCA
** * *
12047914 AAATCTG-TTTTTCAAATTAT--TTTTC
63 ATTTATGTTTTTTCAATTTATACTTTTC
* * * * * * * **
12047939 AAAAACCAATTGATATTGCAAGAAGTGAATTGAGCCTTGGCTAATGTGATGAGCTACTTTCAATT
1 AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTAACATGATGAGCTACTTTCAATT
* *
12048004 TCTG-TTTTTCAATTT-TCGCTTTTC
66 TATGTTTTTTCAATTTAT-ACTTTTC
* * * *
12048028 AAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCA
1 ---AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTAACATGATGAGCTACTTTCA
*
12048093 ATTTATGTTTTTTCAATTTATATTTTTC
63 ATTTATGTTTTTTCAATTTATACTTTTC
* *
12048121 AAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCC
12048157 GTGGGTTCAC
Statistics
Matches: 174, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
86 2 0.01
87 55 0.32
88 6 0.03
89 5 0.03
90 34 0.20
92 55 0.32
93 16 0.09
94 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (90 bp):
AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTAACATGATGAGCTACTTTCAATT
TATGTTTTTTCAATTTATACTTTTC
Found at i:12048107 original size:15 final size:15
Alignment explanation
Indices: 12048087--12048119 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
12048077 TGCTGAGGTA
*
12048087 TTTTCAATTTATGTT
1 TTTTCAATTTATATT
12048102 TTTTCAATTTATATT
1 TTTTCAATTTATATT
12048117 TTT
1 TTT
12048120 CAAAGATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTTCAATTTATATT
Found at i:12049416 original size:25 final size:25
Alignment explanation
Indices: 12049388--12049436 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
12049378 GGCGACGGTC
12049388 AGGCCATCGGACCGGTGACCGGCCA
1 AGGCCATCGGACCGGTGACCGGCCA
12049413 AGGCCATCGGACCGGTGACCGGCC
1 AGGCCATCGGACCGGTGACCGGCC
12049437 CTTGCCCGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.37, G:0.37, T:0.08
Consensus pattern (25 bp):
AGGCCATCGGACCGGTGACCGGCCA
Found at i:12049493 original size:11 final size:11
Alignment explanation
Indices: 12049463--12049494 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
12049453 CTTTCCCCCT
*
12049463 TTCTCTCTCCC
1 TTCTCTCTTCC
12049474 TTCTCTCTTCC
1 TTCTCTCTTCC
12049485 TTCTCTCTTC
1 TTCTCTCTTC
12049495 TTTTTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (11 bp):
TTCTCTCTTCC
Found at i:12049987 original size:22 final size:23
Alignment explanation
Indices: 12049948--12049996 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
12049938 AGTATTTTCG
*
12049948 TTATTTTATTTCATTT-TAAATA
1 TTATTTGATTTCATTTATAAATA
12049970 TTATTTGATTATCATTTATAAATA
1 TTATTTGATT-TCATTTATAAATA
12049994 TTA
1 TTA
12049997 GTGTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.38
23 6 0.25
24 9 0.38
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATTTGATTTCATTTATAAATA
Found at i:12053592 original size:54 final size:54
Alignment explanation
Indices: 12053520--12053721 Score: 248
Period size: 54 Copynumber: 3.8 Consensus size: 54
12053510 TGGCATTTGG
* * * *
12053520 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGTATTGATAAGTTCTA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * *
12053574 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGA-TTACTA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTA
* * *
12053628 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGGC-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * *
12053681 TAAGGCAAGGATACCACGTAAGACCGTGTCAAGACATGGCA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCA
12053722 ATGGTAAGTT
Statistics
Matches: 126, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.03
53 34 0.27
54 82 0.65
55 6 0.05
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
Found at i:12053745 original size:107 final size:107
Alignment explanation
Indices: 12053533--12053746 Score: 270
Period size: 107 Copynumber: 2.0 Consensus size: 107
12053523 GACAAGGATA
* * *
12053533 CCATGTAAGACCATGCCAAGGCATGGTATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGAC
1 CCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGAC
* * * **
12053598 CATGTCAAGACATGGCATTGATGATTACTATAAGGCAAAGGTC
66 CATGTCAAGACATGGCAATGATAATTAC-AAAAGAAAAAGGTC
* * *
12053641 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGAC
1 CCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGAC
* *
12053705 CGTGTCAAGACATGGCAATGGTAAGTTGA-AAAAGAAAAAGGT
66 CATGTCAAGACATGGCAATGATAA-TT-ACAAAAGAAAAAGGT
12053747 TCCCGAGTAA
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
107 52 0.57
108 38 0.42
109 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (107 bp):
CCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGAC
CATGTCAAGACATGGCAATGATAATTACAAAAGAAAAAGGTC
Found at i:12059066 original size:47 final size:47
Alignment explanation
Indices: 12059001--12059122 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
12058991 GCATTGGCAC
*
12059001 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATATCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
12059048 TAAGACAAGGATATCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATATCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
12059095 TAAGATAAGGATATTATGTAAGACCATG
1 TAAGATAAGGATATCATGTAAGACCATG
12059123 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (47 bp):
TAAGATAAGGATATCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:12059229 original size:55 final size:54
Alignment explanation
Indices: 12059110--12059295 Score: 182
Period size: 55 Copynumber: 3.4 Consensus size: 54
12059100 TAAGGATATT
* * * * * **
12059110 ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTGTAAGGCAAGGGAATC
1 ATGTAAGACCATGCCAAGACATGGCATGGATGAGTTCTATAAGGCAAAGGTCTC
*
12059164 ATGTAAGACCATGTCAAGACATGGCATGGATGAGTTACTATAAGGCAAAGGTCTC
1 ATGTAAGACCATGCCAAGACATGGCATGGATGAGTT-CTATAAGGCAAAGGTCTC
* * * *
12059219 ATGTAAGACCATGCCAAGGCAAGTCATTGG-TGAGTTC-ATAAGAC-AAGGATAC-C
1 ATGTAAGACCATGCCAAGACATGGCA-TGGATGAGTTCTATAAGGCAAAGG-T-CTC
* *
12059272 ACGTAAGACCATGTCAAGACATGG
1 ATGTAAGACCATGCCAAGACATGG
12059296 TAATGGTAAG
Statistics
Matches: 110, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
52 4 0.04
53 27 0.25
54 34 0.31
55 42 0.38
56 3 0.03
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.22
Consensus pattern (54 bp):
ATGTAAGACCATGCCAAGACATGGCATGGATGAGTTCTATAAGGCAAAGGTCTC
Found at i:12063851 original size:9 final size:9
Alignment explanation
Indices: 12063824--12063860 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
12063814 TGAGTTTTCG
12063824 AATTCGAAT
1 AATTCGAAT
* *
12063833 AACTCAAAT
1 AATTCGAAT
12063842 AATTCGAAT
1 AATTCGAAT
12063851 AATTCGAAT
1 AATTCGAAT
12063860 A
1 A
12063861 TTAAACATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:12064416 original size:17 final size:17
Alignment explanation
Indices: 12064362--12064418 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
12064352 ATTTCTACTA
*
12064362 TTTATATTATTAAATTAAA
1 TTTATATTATTAAATT--G
* *
12064381 TTTCACATT-TTATATTG
1 TTT-ATATTATTAAATTG
12064398 TTTATATTATTAAATTG
1 TTTATATTATTAAATTG
12064415 TTTA
1 TTTA
12064419 GTCATATTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 4 0.13
17 14 0.45
19 9 0.29
20 4 0.13
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (17 bp):
TTTATATTATTAAATTG
Found at i:12066523 original size:15 final size:15
Alignment explanation
Indices: 12066499--12066531 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
12066489 GAACTGTTTA
12066499 CAAACCTTTCAGGCT
1 CAAACCTTTCAGGCT
*
12066514 CAAACTTTTCAGGCT
1 CAAACCTTTCAGGCT
12066529 CAA
1 CAA
12066532 CCCAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (15 bp):
CAAACCTTTCAGGCT
Found at i:12068085 original size:19 final size:21
Alignment explanation
Indices: 12068049--12068091 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
12068039 CTCTCTCACC
*
12068049 TTTTTTGTTCAAATTTTTAAA
1 TTTTTTGTTCAAAATTTTAAA
12068070 TTTTTT-TT-AAAATTTTAAA
1 TTTTTTGTTCAAAATTTTAAA
12068089 TTT
1 TTT
12068092 AATTATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 2 0.10
21 6 0.29
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTTGTTCAAAATTTTAAA
Found at i:12072581 original size:10 final size:10
Alignment explanation
Indices: 12072566--12072623 Score: 75
Period size: 10 Copynumber: 5.9 Consensus size: 10
12072556 AATTTTAGCT
12072566 TTTATCTTTA
1 TTTATCTTTA
12072576 TTTATCTTT-
1 TTTATCTTTA
12072585 TTCTATCTTTA
1 TT-TATCTTTA
*
12072596 ATTATC-TTA
1 TTTATCTTTA
*
12072605 TTTATCTGTA
1 TTTATCTTTA
12072615 TTTATCTTT
1 TTTATCTTT
12072624 TAGAATTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 10 0.24
10 30 0.73
11 1 0.02
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:12072620 original size:29 final size:30
Alignment explanation
Indices: 12072567--12072623 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
12072557 ATTTTAGCTT
*
12072567 TTATCTTTATTTATCTTTTTCTATCTTTAA
1 TTATCTTTATTTATCTTATTCTATCTTTAA
12072597 TTATC-TTATTTATCTGTATT-TATCTTT
1 TTATCTTTATTTATCT-TATTCTATCTTT
12072624 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (30 bp):
TTATCTTTATTTATCTTATTCTATCTTTAA
Found at i:12075153 original size:46 final size:46
Alignment explanation
Indices: 12075088--12075319 Score: 306
Period size: 46 Copynumber: 5.0 Consensus size: 46
12075078 TTATCTTTGA
* * * * * *
12075088 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
12075134 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
12075180 CACGTTGCTATGGTATCTTTCAACCATGGTCTTAGACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
12075226 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
12075272 CA-GATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
12075318 CA
1 CA
12075320 GATAGCACAC
Statistics
Matches: 167, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 5 0.03
46 162 0.97
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:12082078 original size:5 final size:5
Alignment explanation
Indices: 12082070--12082145 Score: 68
Period size: 5 Copynumber: 14.8 Consensus size: 5
12082060 GCAATCCAAT
*
12082070 TTTTA TTTTTA TTTT- TATTTA TTTTA TTTT- TCTTAA TTTTTA TTTTA
1 TTTTA -TTTTA TTTTA T-TTTA TTTTA TTTTA T-TTTA -TTTTA TTTTA
*
12082117 TTTTA TTTTA TTATTA CTTTA TTTT- TTTT
1 TTTTA TTTTA TT-TTA TTTTA TTTTA TTTT
12082146 GGATGTTGAT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
4 6 0.10
5 40 0.67
6 13 0.22
7 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:12082092 original size:16 final size:16
Alignment explanation
Indices: 12082071--12082142 Score: 78
Period size: 15 Copynumber: 4.6 Consensus size: 16
12082061 CAATCCAATT
12082071 TTTATTTTTATTTTTA
1 TTTATTTTTATTTTTA
*
12082087 TTTA-TTTTATTTTTC
1 TTTATTTTTATTTTTA
*
12082102 TTAATTTTTA-TTTTA
1 TTTATTTTTATTTTTA
*
12082117 TTT-TATTTTATTATTA
1 TTTAT-TTTTATTTTTA
12082133 CTTTATTTTT
1 -TTTATTTTT
12082143 TTTGGATGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.02
15 24 0.52
16 13 0.28
17 7 0.15
18 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:12082094 original size:21 final size:22
Alignment explanation
Indices: 12082070--12082145 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 22
12082060 GCAATCCAAT
12082070 TTTTATTTTTATTTTTA-TTTA
1 TTTTATTTTTATTTTTACTTTA
*
12082091 TTTTATTTTTCTTAATTTTTATTTTA
1 TTTTA--TTT-TT-ATTTTTACTTTA
*
12082117 TTTTA-TTTTATTATTACTTTA
1 TTTTATTTTTATTTTTACTTTA
12082138 TTTT-TTTT
1 TTTTATTTT
12082146 GGATGTTGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
21 22 0.47
22 2 0.04
23 5 0.11
24 2 0.04
25 7 0.15
26 9 0.19
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTATTTTTATTTTTACTTTA
Found at i:12082110 original size:31 final size:32
Alignment explanation
Indices: 12082074--12082142 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 32
12082064 TCCAATTTTT
*
12082074 ATTTTTATTTT-TATTTATTTTATT-TTTCTTA
1 ATTTTTATTTTAT-TTTATTTTATTATTACTTA
*
12082105 ATTTTTATTTTATTTTATTTTATTATTACTTT
1 ATTTTTATTTTATTTTATTTTATTATTACTTA
12082137 ATTTTT
1 ATTTTT
12082143 TTTGGATGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 22 0.65
32 12 0.35
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (32 bp):
ATTTTTATTTTATTTTATTTTATTATTACTTA
Found at i:12082467 original size:3 final size:3
Alignment explanation
Indices: 12082459--12082489 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12082449 TTGCTGCCCA
12082459 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12082490 TAAGAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:12083104 original size:99 final size:99
Alignment explanation
Indices: 12082970--12083153 Score: 260
Period size: 99 Copynumber: 1.9 Consensus size: 99
12082960 ATAATTTTTT
* * * * *
12082970 TTAGGAATATGTCGGGCTGAGTAATCAAGGTGGGGTGTTTGGCTGTCATCTCTCTTTGTGTCAAA
1 TTAGGAATATGTCGGGCTGAGTAACCAAGGCGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
* *
12083035 AGGTTTAATATGTTCTTAAGAAAAATATAATAAA
66 AGGTTCAATATATTCTTAAGAAAAATATAATAAA
* * **
12083069 TTAGGAGTATGTTGGGCTGAGTAACCGGGGCGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
1 TTAGGAATATGTCGGGCTGAGTAACCAAGGCGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
*
12083134 AGGTTCAATGTATTCTTAAG
66 AGGTTCAATATATTCTTAAG
12083154 CAATAATAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
99 73 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.34
Consensus pattern (99 bp):
TTAGGAATATGTCGGGCTGAGTAACCAAGGCGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
AGGTTCAATATATTCTTAAGAAAAATATAATAAA
Found at i:12083195 original size:19 final size:18
Alignment explanation
Indices: 12083171--12083222 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
12083161 AATAATGATT
12083171 AAAATAAAAACAAAA-AGGA
1 AAAATAAAAA-AAAATA-GA
12083190 AAAATAGAAAAAAAATAGA
1 AAAATA-AAAAAAAATAGA
*
12083209 AAAAGAAAAAAAAA
1 AAAATAAAAAAAAA
12083223 GTGATGTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.27
19 17 0.57
20 5 0.17
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.06
Consensus pattern (18 bp):
AAAATAAAAAAAAATAGA
Found at i:12083865 original size:10 final size:10
Alignment explanation
Indices: 12083851--12083899 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
12083841 AATTTTAGCT
*
12083851 TTTATCTTTT
1 TTTATCTTTA
12083861 TTTATCTTTA
1 TTTATCTTTA
*
12083871 ATTATCTTTA
1 TTTATCTTTA
12083881 TTTAT-TTGTA
1 TTTATCTT-TA
12083891 TTTATCTTT
1 TTTATCTTT
12083900 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:12088529 original size:20 final size:20
Alignment explanation
Indices: 12088506--12088557 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
12088496 TTACTTCTCC
*
12088506 CACGTCCGTGTGACTT-TCCA
1 CACGCCCGTGTGACTTAT-CA
*
12088526 CACGCCCGTGTAACTTATCA
1 CACGCCCGTGTGACTTATCA
12088546 CACGCCCGTGTG
1 CACGCCCGTGTG
12088558 GCACAGCCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.17, C:0.37, G:0.21, T:0.25
Consensus pattern (20 bp):
CACGCCCGTGTGACTTATCA
Found at i:12093807 original size:29 final size:29
Alignment explanation
Indices: 12093746--12093816 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
12093736 TTATTTAAAT
12093746 TAAATTTTAAAAAATATAAAAATAAAAAAAC
1 TAAATTTT-AAAAATAT-AAAATAAAAAAAC
* * *
12093777 TAATTTCTTAAAAATAT-AAATACAAAGAC
1 TAAATT-TTAAAAATATAAAATAAAAAAAC
12093806 TAAATTTTAAA
1 TAAATTTTAAA
12093817 TTCATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 5 0.14
29 15 0.43
31 13 0.37
32 2 0.06
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (29 bp):
TAAATTTTAAAAATATAAAATAAAAAAAC
Found at i:12100301 original size:15 final size:15
Alignment explanation
Indices: 12100277--12100309 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
12100267 GAACTGTTGA
12100277 CAAACCTTTCAGGCT
1 CAAACCTTTCAGGCT
*
12100292 CAAACTTTTCAGGCT
1 CAAACCTTTCAGGCT
12100307 CAA
1 CAA
12100310 CCCAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (15 bp):
CAAACCTTTCAGGCT
Found at i:12101870 original size:14 final size:13
Alignment explanation
Indices: 12101848--12101889 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
12101838 CAAAGGCATG
12101848 TTTAAGTATTTAT
1 TTTAAGTATTTAT
12101861 TTTGAAGTA-TTAT
1 TTT-AAGTATTTAT
*
12101874 ATATAAGTATTTAT
1 -TTTAAGTATTTAT
12101888 TT
1 TT
12101890 GATTTTAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (13 bp):
TTTAAGTATTTAT
Found at i:12103216 original size:18 final size:19
Alignment explanation
Indices: 12103176--12103222 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
12103166 TTTCCCGAGA
* *
12103176 ATTTTAATATGCTTCTAGC
1 ATTTTAATATCCTTCAAGC
*
12103195 ATTTTAA-ATCCTTCAAGG
1 ATTTTAATATCCTTCAAGC
12103213 ATTTTAATAT
1 ATTTTAATAT
12103223 AAACTTTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.47
Consensus pattern (19 bp):
ATTTTAATATCCTTCAAGC
Found at i:12108673 original size:40 final size:40
Alignment explanation
Indices: 12108618--12108697 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
12108608 AATCACGTAA
* *
12108618 CTTGCGTTCGTGATTTAAGATCTCGATAGTCTTGCGATCT
1 CTTGCATTCGCGATTTAAGATCTCGATAGTCTTGCGATCT
12108658 CTTGCATTCGCGATTTAAGATCTCGATAGTCTTGCGATCT
1 CTTGCATTCGCGATTTAAGATCTCGATAGTCTTGCGATCT
12108698 AGAAAAGCCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (40 bp):
CTTGCATTCGCGATTTAAGATCTCGATAGTCTTGCGATCT
Found at i:12109989 original size:9 final size:9
Alignment explanation
Indices: 12109975--12110000 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
12109965 GTTATTTGAA
12109975 TCGAGTTAT
1 TCGAGTTAT
12109984 TCGAGTTAT
1 TCGAGTTAT
12109993 TCGAGTTA
1 TCGAGTTA
12110001 ATCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:12115263 original size:16 final size:17
Alignment explanation
Indices: 12115242--12115273 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12115232 ATTTAGTTTT
12115242 TGTTTCTCT-TTCTCTC
1 TGTTTCTCTGTTCTCTC
12115258 TGTTTCTCTGTTCTCT
1 TGTTTCTCTGTTCTCT
12115274 GTCTCTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.00, C:0.28, G:0.09, T:0.62
Consensus pattern (17 bp):
TGTTTCTCTGTTCTCTC
Found at i:12116103 original size:15 final size:15
Alignment explanation
Indices: 12116079--12116111 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
12116069 GAACTGTTGA
12116079 CAAACCTTTCAGGCT
1 CAAACCTTTCAGGCT
*
12116094 CAAACTTTTCAGGCT
1 CAAACCTTTCAGGCT
12116109 CAA
1 CAA
12116112 CCCAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (15 bp):
CAAACCTTTCAGGCT
Found at i:12120460 original size:19 final size:18
Alignment explanation
Indices: 12120425--12120460 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12120415 GAAGCAAGCA
*
12120425 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
12120443 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
12120461 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:12122641 original size:14 final size:14
Alignment explanation
Indices: 12122622--12122648 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12122612 CAAAGGCATG
12122622 TTTAAATATTTATA
1 TTTAAATATTTATA
12122636 TTTAAATATTTAT
1 TTTAAATATTTAT
12122649 TTGACTTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAAATATTTATA
Found at i:12124336 original size:16 final size:15
Alignment explanation
Indices: 12124315--12124386 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 15
12124305 CAAAGATTGG
12124315 GAACAACTCTTATTTA
1 GAACAACT-TTATTTA
*
12124331 GAACAATTGTTATGTTCA
1 GAACAACT-TTAT-TT-A
* * *
12124349 TAACAACTATAGTTTG
1 GAACAACTTTA-TTTA
12124365 GAACAACTTTTATTTA
1 GAACAAC-TTTATTTA
12124381 GAACAA
1 GAACAA
12124387 TTATGTTTCT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
16 26 0.60
17 9 0.21
18 8 0.19
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (15 bp):
GAACAACTTTATTTA
Found at i:12125022 original size:24 final size:23
Alignment explanation
Indices: 12124983--12125049 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
12124973 CACCAAACTT
12124983 TTCTCCTCTTTT-CTCTCCTTACTC
1 TTCTCCT-TTTTCCTCTCCTT-CTC
*
12125007 TTCTCCTTTTTCCTCTCCCTTTTC
1 TTCTCCTTTTTCCTCT-CCTTCTC
* *
12125031 TTCT-CTCTTTCCTTTCCTT
1 TTCTCCTTTTTCCTCTCCTT
12125050 TTGTTTCGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
22 4 0.11
23 13 0.34
24 17 0.45
25 4 0.11
ACGTcount: A:0.01, C:0.40, G:0.00, T:0.58
Consensus pattern (23 bp):
TTCTCCTTTTTCCTCTCCTTCTC
Found at i:12127479 original size:47 final size:47
Alignment explanation
Indices: 12127374--12127727 Score: 325
Period size: 47 Copynumber: 7.3 Consensus size: 47
12127364 TGTGATTTCC
* * * * *
12127374 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTCC
1 GTATAAGACCATATCTGGGATATGGCATC-G-G---TGTGATATGTGCTACT
*
12127426 GTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACT
* * **
12127473 GTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGATTTT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACT
* * * * * *
12127520 CGTATAAGACCATAGCTGGGCTATGGCTTTGGAGAAATGTGATATGTGCTTCC
1 -GTATAAGACCATATCTGGGATATGGC-ATCG-G---TGTGATATGTGCTACT
*
12127573 GTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACT
* * *
12127620 GTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGAT-CC
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACT
* ** * *
12127666 GTGTAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTGACTA-T
1 GTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG-CTACT
**
12127715 GTGCAAGACCATA
1 GTATAAGACCATA
12127728 GTTTTACTAT
Statistics
Matches: 252, Mismatches: 40, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
46 26 0.10
47 111 0.44
48 35 0.14
49 13 0.05
50 3 0.01
51 3 0.01
52 48 0.19
53 13 0.05
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACT
Found at i:12127583 original size:100 final size:99
Alignment explanation
Indices: 12127457--12127645 Score: 288
Period size: 100 Copynumber: 1.9 Consensus size: 99
12127447 ATGGCATCGG
* * **
12127457 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGATTTTCG
1 TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAGTGTGATATGTGATACT-G
*
12127522 TATAAGACCATAGCTGGGCTATGGCTTTGGAGAAA
65 TATAAGACCATAGCTGGGATATGGCTTTGGAGAAA
* * *
12127557 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACTGT
1 TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAGTGTGATATGTGATACTGT
*
12127622 ATAAGACCATATCTGGGATATGGC
66 ATAAGACCATAGCTGGGATATGGC
12127646 ATCAGTGTGA
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
99 24 0.30
100 56 0.70
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (99 bp):
TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAGTGTGATATGTGATACTGT
ATAAGACCATAGCTGGGATATGGCTTTGGAGAAA
Found at i:12127624 original size:147 final size:147
Alignment explanation
Indices: 12127348--12127696 Score: 614
Period size: 147 Copynumber: 2.4 Consensus size: 147
12127338 TGGTTGGACC
* *
12127348 ATGGCAGCA-TGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATG
1 ATGGCATCAGTGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATG
12127412 TGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACTGTAT
66 TGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACTGTAT
12127477 AAGACCATATCTGGGAT
131 AAGACCATATCTGGGAT
* *
12127494 ATGGCATCAGTGTGATATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCTTTGGAGAAATG
1 ATGGCATCAGTGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATG
12127559 TGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACTGTAT
66 TGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACTGTAT
12127624 AAGACCATATCTGGGAT
131 AAGACCATATCTGGGAT
* * *
12127641 ATGGCATCAGTGTGATATGTGA--TCCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGGCATCAGTGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
12127697 TATGTGATAT
Statistics
Matches: 193, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
145 29 0.15
146 8 0.04
147 156 0.81
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (147 bp):
ATGGCATCAGTGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATG
TGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACTGTAT
AAGACCATATCTGGGAT
Found at i:12127725 original size:194 final size:198
Alignment explanation
Indices: 12127356--12127728 Score: 470
Period size: 194 Copynumber: 1.9 Consensus size: 198
12127346 CCATGGCAGC
* * * *
12127356 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTG
1 ATGTGAAATGTGACTTCCGTATAAGACCATAGCCGGGATATGGCATCGGAG--ATGTGATATGTG
* * * *
12127421 CTTCCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACTGTATAAGACCATA
64 CTACCGTATAAGACCATATCCGGGATATGGCATCAGTGTGATATGTGATACCGTATAAGACCATA
* * * *
12127486 TCTGGGATATGGCATCAGTGTGATATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCTTTG
129 GCTGGGATATGGCATCAGTGTGATATGTGACTATCGTACAAGACCATAGCTGGGCTATGGCTTTG
12127551 GAGAA
194 GAGAA
* *
12127556 ATGTGATATGTG-CTTCCGTATAAGACCATATCCGGGATATGGCATC-G-G-TGTGATATGTGCT
1 ATGTGAAATGTGACTTCCGTATAAGACCATAGCCGGGATATGGCATCGGAGATGTGATATGTGCT
* * * *
12127617 ACTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGAT-CCGTGTAAGACCATGGC
66 ACCGTATAAGACCATATCCGGGATATGGCATCAGTGTGATATGTGATACCGTATAAGACCATAGC
* * * *
12127681 TGGGCTATGGCCTCGGTATGTGATATGTGACTAT-GTGCAAGACCATAG
131 TGGGATATGGCATCAG--TGTGATATGTGACTATCGTACAAGACCATAG
12127729 TTTTACTATG
Statistics
Matches: 149, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
193 26 0.17
194 67 0.45
195 14 0.09
197 1 0.01
198 1 0.01
199 29 0.19
200 11 0.07
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (198 bp):
ATGTGAAATGTGACTTCCGTATAAGACCATAGCCGGGATATGGCATCGGAGATGTGATATGTGCT
ACCGTATAAGACCATATCCGGGATATGGCATCAGTGTGATATGTGATACCGTATAAGACCATAGC
TGGGATATGGCATCAGTGTGATATGTGACTATCGTACAAGACCATAGCTGGGCTATGGCTTTGGA
GAA
Found at i:12130122 original size:21 final size:21
Alignment explanation
Indices: 12130062--12130122 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
12130052 TCTACAAATC
* *
12130062 TGGTAGCTTGTCCACATATTTT
1 TGGTAGCTTGTCTACA-ATTAT
* * *
12130084 TGGTAGTTTATCTGCAATTAT
1 TGGTAGCTTGTCTACAATTAT
*
12130105 TGGTGGCTTGTCTACAAT
1 TGGTAGCTTGTCTACAAT
12130123 ATGGTGTGTA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (21 bp):
TGGTAGCTTGTCTACAATTAT
Found at i:12142970 original size:13 final size:13
Alignment explanation
Indices: 12142952--12142981 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12142942 CACAATTGTA
*
12142952 TGGCCAGGCTGTG
1 TGGCCAGGCCGTG
12142965 TGGCCAGGCCGTG
1 TGGCCAGGCCGTG
12142978 TGGC
1 TGGC
12142982 ACCCAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.27, G:0.47, T:0.20
Consensus pattern (13 bp):
TGGCCAGGCCGTG
Found at i:12145996 original size:77 final size:79
Alignment explanation
Indices: 12145862--12146082 Score: 225
Period size: 78 Copynumber: 2.8 Consensus size: 79
12145852 GAATGGTTTT
* * *
12145862 ATAAGCTGTGTATCAACAAAGCTCCTCCATGAGCTAAGGAGAAGTTGTGTATCAGCAAAGCTCCC
1 ATAAACTGTGTATCAACAAAGCTCCTCCATGAGCTAAGGACAAGCTGTGTATCAGCAAAGCTCCC
*
12145927 CT-TGAGCTTATGG
66 CTGTGAGCTTATGA
* * * * * * *
12145940 ATAAATTGTGTATCAGCAAAGCT-TTCTATGAGCTGAGGACAAGCTGTGTATTAGCAAATCTCCC
1 ATAAACTGTGTATCAACAAAGCTCCTCCATGAGCTAAGGACAAGCTGTGTATCAGCAAAGCTCCC
*
12146004 TTGTGAGCTTATGA
66 CTGTGAGCTTATGA
* * * * * *
12146018 ATAAGCTGTGTATTAACAAA-CTTCC-CCTGTGAGCTTATGAATAAGCTGTGTATCAGCAAAGCT
1 ATAAACTGTGTATCAACAAAGC-TCCTCC-ATGAGC-TAAGGACAAGCTGTGTATCAGCAAAGCT
12146081 CC
63 CC
12146083 TGCGTGAGCA
Statistics
Matches: 113, Mismatches: 25, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
77 36 0.32
78 48 0.42
79 5 0.04
80 24 0.21
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (79 bp):
ATAAACTGTGTATCAACAAAGCTCCTCCATGAGCTAAGGACAAGCTGTGTATCAGCAAAGCTCCC
CTGTGAGCTTATGA
Found at i:12146028 original size:40 final size:39
Alignment explanation
Indices: 12145907--12146082 Score: 160
Period size: 40 Copynumber: 4.5 Consensus size: 39
12145897 AAGGAGAAGT
* * **
12145907 TGTGTATCAGCAAAGCTCCCCT-TGAGCTTATGGATAAAT
1 TGTGTATTAGCAAA-CTCCCCTGTGAGCTTATGAATAAGC
* ** * * * *
12145946 TGTGTATCAGCAAAGCT-TTCTATGAGCTGA-GGACAAGC
1 TGTGTATTAGCAAA-CTCCCCTGTGAGCTTATGAATAAGC
*
12145984 TGTGTATTAGCAAATCTCCCTTGTGAGCTTATGAATAAGC
1 TGTGTATTAGCAAA-CTCCCCTGTGAGCTTATGAATAAGC
*
12146024 TGTGTATTAACAAACTTCCCCTGTGAGCTTATGAATAAGC
1 TGTGTATTAGCAAAC-TCCCCTGTGAGCTTATGAATAAGC
*
12146064 TGTGTATCAGCAAAGCTCC
1 TGTGTATTAGCAAA-CTCC
12146083 TGCGTGAGCA
Statistics
Matches: 113, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
38 22 0.19
39 33 0.29
40 57 0.50
41 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (39 bp):
TGTGTATTAGCAAACTCCCCTGTGAGCTTATGAATAAGC
Found at i:12146090 original size:40 final size:40
Alignment explanation
Indices: 12145862--12146091 Score: 195
Period size: 39 Copynumber: 5.8 Consensus size: 40
12145852 GAATGGTTTT
* * *
12145862 ATAAGCTGTGTATCAACAAAGCTCCTCCATGAGC-TAAGG
1 ATAAGCTGTGTATCAGCAAAGCTCCTCCGTGAGCTTATGG
* * *
12145901 AGAAGTTGTGTATCAGCAAAGCTCC-CCTTGAGCTTATGG
1 ATAAGCTGTGTATCAGCAAAGCTCCTCCGTGAGCTTATGG
** * ** *
12145940 ATAAATTGTGTATCAGCAAAGCT-TTCTATGAGCTGA-GG
1 ATAAGCTGTGTATCAGCAAAGCTCCTCCGTGAGCTTATGG
* * * * *
12145978 ACAAGCTGTGTATTAGCAAATCTCC-CTTGTGAGCTTATGA
1 ATAAGCTGTGTATCAGCAAAGCTCCTC-CGTGAGCTTATGG
* * *
12146018 ATAAGCTGTGTATTAACAAA-CTTCC-CCTGTGAGCTTATGA
1 ATAAGCTGTGTATCAGCAAAGC-TCCTCC-GTGAGCTTATGG
*
12146058 ATAAGCTGTGTATCAGCAAAGCTCCTGCGTGAGC
1 ATAAGCTGTGTATCAGCAAAGCTCCTCCGTGAGC
12146092 AAATGATAAA
Statistics
Matches: 156, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
38 28 0.18
39 64 0.41
40 62 0.40
41 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (40 bp):
ATAAGCTGTGTATCAGCAAAGCTCCTCCGTGAGCTTATGG
Found at i:12149746 original size:27 final size:27
Alignment explanation
Indices: 12149716--12149769 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
12149706 AACAAAGCTG
*
12149716 CCAGTAACAGTATATGTGGCAAAGCCA
1 CCAGAAACAGTATATGTGGCAAAGCCA
* *
12149743 CCAGAAATAGTATATGTGGCGAAGCCA
1 CCAGAAACAGTATATGTGGCAAAGCCA
12149770 TCGGTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAAACAGTATATGTGGCAAAGCCA
Found at i:12161056 original size:26 final size:26
Alignment explanation
Indices: 12161027--12161081 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
12161017 AATACACCAA
* * *
12161027 TATCACAGCAAGGCTGCCAGTAATAG
1 TATCACAACAAAGCTGCCAGTAACAG
*
12161053 TATCGCAACAAAGCTGCCAGTAACAG
1 TATCACAACAAAGCTGCCAGTAACAG
12161079 TAT
1 TAT
12161082 ATGTGGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (26 bp):
TATCACAACAAAGCTGCCAGTAACAG
Found at i:12161099 original size:27 final size:27
Alignment explanation
Indices: 12161069--12161122 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
12161059 AACAAAGCTG
*
12161069 CCAGTAACAGTATATGTGGCAAAGCCA
1 CCAGAAACAGTATATGTGGCAAAGCCA
* *
12161096 CCAGAAATAGTATATGTGGCGAAGCCA
1 CCAGAAACAGTATATGTGGCAAAGCCA
12161123 TCGGTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAAACAGTATATGTGGCAAAGCCA
Found at i:12176028 original size:27 final size:27
Alignment explanation
Indices: 12175991--12176195 Score: 214
Period size: 27 Copynumber: 7.6 Consensus size: 27
12175981 TAAATTGTAC
*
12175991 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12176018 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
12176045 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12176071 ACGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
12176099 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
12176126 AGCACTAAGTATGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
12176154 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12176181 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12176196 GTCTTAATAT
Statistics
Matches: 150, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
27 127 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:12176052 original size:54 final size:54
Alignment explanation
Indices: 12175992--12176195 Score: 248
Period size: 54 Copynumber: 3.8 Consensus size: 54
12175982 AAATTGTACA
* * *
12175992 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
12176046 GCACTAAGTGTGCGAAATGAAAATG-ACGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
* **
12176100 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTATGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
12176155 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
12176196 GTCTTAATAT
Statistics
Matches: 126, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 79 0.63
55 46 0.37
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:12179934 original size:27 final size:26
Alignment explanation
Indices: 12179901--12179970 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
12179891 CCCTCAGTTG
*
12179901 TAAAATTACCAAAGTATCCCCGGTTTA
1 TAAAATTACCAAA-TATCCCCGATTTA
* *
12179928 TAAAATTACCCAAATATCCTCGATTTT
1 TAAAATTA-CCAAATATCCCCGATTTA
12179955 TAAAATTACCGAAATA
1 TAAAATTACC-AAATA
12179971 CTCTTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
27 31 0.82
28 5 0.13
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (26 bp):
TAAAATTACCAAATATCCCCGATTTA
Found at i:12179985 original size:27 final size:27
Alignment explanation
Indices: 12179928--12180016 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
12179918 CCCCGGTTTA
* * *
12179928 TAAAATTACCCAAATA-TCCTCGATTTT
1 TAAAATTACCGAAATACT-CTTGATTTG
12179955 TAAAATTACCGAAATACTCTT-AGTTTG
1 TAAAATTACCGAAATACTCTTGA-TTTG
* * *
12179982 TAAAATTACTGAAATACCCTTGACTTG
1 TAAAATTACCGAAATACTCTTGATTTG
12180009 TAAAATTA
1 TAAAATTA
12180017 TCAAAGTACC
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 50 0.94
28 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (27 bp):
TAAAATTACCGAAATACTCTTGATTTG
Found at i:12180053 original size:27 final size:27
Alignment explanation
Indices: 12180023--12180378 Score: 442
Period size: 27 Copynumber: 13.2 Consensus size: 27
12180013 ATTATCAAAG
* * * *
12180023 TACCCTGGAATTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
12180050 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
12180077 TACCCTCAATTTACAAAATTACAATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
12180104 TACGCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* **
12180131 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
12180158 TACCCTCGATTGACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
12180185 TACCCTCGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * * *
12180212 TACCCTCAATTTGCAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
12180239 TACCCTCGATTGACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
12180266 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
12180293 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
12180320 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
12180347 TACCTTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
12180374 TACCC
1 TACCC
12180379 CTACGGTGTT
Statistics
Matches: 283, Mismatches: 46, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 283 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:12180733 original size:26 final size:27
Alignment explanation
Indices: 12180704--12180763 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
12180694 CCACATATAT
*
12180704 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
12180730 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
12180757 ATATCTG
1 ATATCTG
12180764 GTAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:12180917 original size:31 final size:31
Alignment explanation
Indices: 12180882--12180985 Score: 154
Period size: 31 Copynumber: 3.4 Consensus size: 31
12180872 TTGCATTCAC
* * *
12180882 ATTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
* * *
12180913 ATTCTGATTCTAATTTTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
12180944 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
12180975 ATTCTGATTCT
1 ATTCTGATTCT
12180986 CATTTTGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:12180953 original size:6 final size:6
Alignment explanation
Indices: 12180942--12181006 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
12180932 CACCTAATTT
* * * *
12180942 TGATTC TGATTC TGATTC TG-TCACC TAATTC TGATTC TGATTC TCATTT
1 TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC
12180991 TGATTC T-AGTTC TGAT
1 TGATTC TGA-TTC TGAT
12181007 AATGTTTCTT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
5 2 0.04
6 40 0.87
7 3 0.07
8 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:12185089 original size:11 final size:11
Alignment explanation
Indices: 12185075--12185119 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
12185065 AGATAAATAT
12185075 TATTTTATTAA
1 TATTTTATTAA
*
12185086 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
12185099 TATTTTATTAT
1 TATTTTATTAA
12185110 TATTTTATTA
1 TATTTTATTA
12185120 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:12187016 original size:46 final size:46
Alignment explanation
Indices: 12186964--12187314 Score: 443
Period size: 46 Copynumber: 7.6 Consensus size: 46
12186954 GCTCTCTGAA
** *
12186964 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
12187010 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** * *
12187056 ATGCAATGTGTAAGACCATGGTTGAAAGATACCATTGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
12187102 ATGAAAAGAATAAGACCGTGGTTGAGAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *** *
12187148 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGTGTGGC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
12187194 ATGAAATGAATAAGACCGTGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
12187240 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
12187286 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
12187315 CACTATGACA
Statistics
Matches: 267, Mismatches: 37, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.00
46 266 1.00
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:12187216 original size:138 final size:138
Alignment explanation
Indices: 12186974--12187329 Score: 505
Period size: 138 Copynumber: 2.6 Consensus size: 138
12186964 ATGAAATGTG
* *
12186974 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAGTAAGACCATGGTTGAAAGA
* * ** *
12187039 TACCATGACAACATGATATGCAATGTGTAAGACCATGGTTGAAAGATACCATTGCAACGTGACAT
66 TACCATGACAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
12187104 GAAAAGAA
131 GAAAAGAA
* * * *
12187112 TAAGACCGTGGTTGAGAGATACCATGGCAACATGATGGGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAGTAAGACCATGGTTGAAAGA
* *** * *
12187177 TACCATGGCAGTGTGGCATGAAATGAATAAGACCGTGGTTGAAAGATACCATGGCAACGTGACAT
66 TACCATGACAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
12187242 GAAAAGAA
131 GAAAAGAA
* * *
12187250 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAGTAAGACCATGGTTGAAAGA
* * *
12187315 CACTATGACATCATG
66 TACCATGACAACATG
12187330 TCAAAGATAA
Statistics
Matches: 188, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
138 188 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAGTAAGACCATGGTTGAAAGA
TACCATGACAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
GAAAAGAA
Found at i:12189975 original size:43 final size:43
Alignment explanation
Indices: 12189914--12190148 Score: 301
Period size: 43 Copynumber: 5.5 Consensus size: 43
12189904 GCATTTATTT
* * *
12189914 AAAAAATGCTGCTAAAGGTCATGACCTTTAGTGGCGCTTTCCC
1 AAAAAATGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTCCC
*
12189957 AAAAAATGCCGCTAAAGGTCATGACTTTTAGCTGCGCTTTCCC
1 AAAAAATGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTCCC
* * *
12190000 CAAAAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTCCCC
1 AAAAAATGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTCCC
* * *
12190043 AAAAAATACCGCTAAAGGTCATGACTTTTAGCGGTGCTTACCC
1 AAAAAATGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTCCC
* * * * *
12190086 CACAAATGCCGCTAAAGGTCATG-GTTTTAGCGACGCTTTCCT
1 AAAAAATGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTCCC
* * *
12190128 TAAAAATGCCACTAAAAGTCA
1 AAAAAATGCCGCTAAAGGTCA
12190149 CCACTATCCC
Statistics
Matches: 167, Mismatches: 25, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
42 31 0.19
43 136 0.81
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
AAAAAATGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTCCC
Found at i:12194831 original size:15 final size:14
Alignment explanation
Indices: 12194813--12194856 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
12194803 TAAATATTAA
12194813 ATTTTTAAGTTTTTT
1 ATTTTTAA-TTTTTT
*
12194828 ATTTTTAATTTTTAA
1 ATTTTTAATTTTT-T
*
12194843 ATTTTAAATTTTTT
1 ATTTTTAATTTTTT
12194857 TGAAGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (14 bp):
ATTTTTAATTTTTT
Found at i:12194881 original size:8 final size:8
Alignment explanation
Indices: 12194809--12194881 Score: 62
Period size: 7 Copynumber: 8.9 Consensus size: 8
12194799 ATATTAAATA
12194809 TTAAATTT
1 TTAAATTT
*
12194817 TTAAGTTT
1 TTAAATTT
*
12194825 TT-TATTT
1 TTAAATTT
12194832 TT-AATTT
1 TTAAATTT
12194839 TTAAA-TT
1 TTAAATTT
12194846 TTAAATTTTT
1 TTAAA--TTT
12194856 TTGAAGATTT
1 TT-AA-ATTT
12194866 TTATAATTT
1 TTA-AATTT
12194875 TTAAATT
1 TTAAATT
12194882 ATCATATAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
7 18 0.33
8 15 0.28
9 8 0.15
10 10 0.19
11 2 0.04
12 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (8 bp):
TTAAATTT
Found at i:12195643 original size:21 final size:21
Alignment explanation
Indices: 12195619--12195666 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
12195609 ACCTTAAAAA
*
12195619 CCTAAAACTT-AACCCATAACC
1 CCTAAAACTTAAACCC-CAACC
**
12195640 CCTAAGCCTTAAACCCCAACC
1 CCTAAAACTTAAACCCCAACC
12195661 CCTAAA
1 CCTAAA
12195667 CCATAATCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.40, C:0.42, G:0.02, T:0.17
Consensus pattern (21 bp):
CCTAAAACTTAAACCCCAACC
Found at i:12195677 original size:14 final size:15
Alignment explanation
Indices: 12195660--12195688 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12195650 AAACCCCAAC
12195660 CCCTAAAC-CATAAT
1 CCCTAAACTCATAAT
12195674 CCCTAAACTCATAAT
1 CCCTAAACTCATAAT
12195689 TCATAAACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (15 bp):
CCCTAAACTCATAAT
Found at i:12195741 original size:14 final size:14
Alignment explanation
Indices: 12195721--12195765 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
12195711 CCATACACTG
12195721 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
12195735 TATACCCTAAACCA
1 TAAACCCTAAACCA
* *
12195749 TAAACTCTAAACTA
1 TAAACCCTAAACCA
12195763 TAA
1 TAA
12195766 TGATAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:12195871 original size:7 final size:7
Alignment explanation
Indices: 12195859--12195972 Score: 63
Period size: 7 Copynumber: 16.0 Consensus size: 7
12195849 ACTAATTAAT
12195859 CTAAACC
1 CTAAACC
12195866 CTAAACTC
1 CTAAAC-C
* *
12195874 TTAATCC
1 CTAAACC
12195881 CTAAACC
1 CTAAACC
12195888 CTAAACC
1 CTAAACC
* *
12195895 ATAAATC
1 CTAAACC
*
12195902 CTAAAAC
1 CTAAACC
*
12195909 ATAAACC
1 CTAAACC
*
12195916 CTGAACTC
1 CTAAAC-C
12195924 CT-AACC
1 CTAAACC
*
12195930 CTTAACCC
1 C-TAAACC
12195938 CT-AACAC
1 CTAAAC-C
*
12195945 CTAAACA
1 CTAAACC
* *
12195952 TTAAACA
1 CTAAACC
12195959 CT-AACC
1 CTAAACC
12195965 CTTAAACC
1 C-TAAACC
12195973 ACCTTTAAAC
Statistics
Matches: 81, Mismatches: 18, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
6 8 0.10
7 54 0.67
8 19 0.23
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:12195908 original size:22 final size:22
Alignment explanation
Indices: 12195859--12195906 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
12195849 ACTAATTAAT
*
12195859 CTAAACCCTAAACTCTTAATCC
1 CTAAACCCTAAACTCTAAATCC
12195881 CTAAACCCTAAAC-CATAAAT-C
1 CTAAACCCTAAACTC-TAAATCC
12195902 CTAAA
1 CTAAA
12195907 ACATAAACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (22 bp):
CTAAACCCTAAACTCTAAATCC
Found at i:12196356 original size:40 final size:40
Alignment explanation
Indices: 12196303--12196448 Score: 168
Period size: 40 Copynumber: 3.6 Consensus size: 40
12196293 TTCTTTTGCG
* * *
12196303 GCGTTGTTCAAAAAACGCCGCTAAAGATCGAGCATTAGTA
1 GCGTTTTTTAAAAAACGCCGCTAAAGATCGAGCATTAGCA
* * *
12196343 GCATTTTTTAAAAAGCGCCGCTAAAGATCGAGCATTAGCG
1 GCGTTTTTTAAAAAACGCCGCTAAAGATCGAGCATTAGCA
* * * *
12196383 GCGTTTTTTAAAAAACGTCGCTAAAGGT-GTGCCTATAGCA
1 GCGTTTTTTAAAAAACGCCGCTAAAGATCGAGCAT-TAGCA
* *
12196423 GCGTTTCTTAAAAAATGCCGCTAAAG
1 GCGTTTTTTAAAAAACGCCGCTAAAG
12196449 GTTTACATAT
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 4 0.04
40 85 0.96
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (40 bp):
GCGTTTTTTAAAAAACGCCGCTAAAGATCGAGCATTAGCA
Found at i:12196434 original size:80 final size:80
Alignment explanation
Indices: 12196300--12196485 Score: 189
Period size: 80 Copynumber: 2.3 Consensus size: 80
12196290 AAATTCTTTT
* * * * *
12196300 GCGGCGTTGTTCAAAAAACGCCGCTAAAGATCGAGCATTAGTAGCATTTTTTAAAAAGCGCCGCT
1 GCGGCGTTTTTTAAAAAACGCCGCTAAAGATCGAGCATTAGCAGCATTTCTTAAAAAACGCCGCT
12196365 AAAGATCGAGCAT-TA
66 AAAGATCGA-CATATA
* * * * * *
12196380 GCGGCGTTTTTTAAAAAACGTCGCTAAAGGT-GTGCCTATAGCAGCGTTTCTTAAAAAATGCCGC
1 GCGGCGTTTTTTAAAAAACGCCGCTAAAGATCGAGCAT-TAGCAGCATTTCTTAAAAAACGCCGC
* **
12196444 TAAAGGTTTACATATA
65 TAAAGATCGACATATA
**
12196460 GCGGCG-TTTTTAAAAAGTGCCGCTAA
1 GCGGCGTTTTTTAAAAAACGCCGCTAA
12196486 TGCTTGTTCT
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
79 24 0.28
80 63 0.72
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (80 bp):
GCGGCGTTTTTTAAAAAACGCCGCTAAAGATCGAGCATTAGCAGCATTTCTTAAAAAACGCCGCT
AAAGATCGACATATA
Found at i:12196473 original size:39 final size:39
Alignment explanation
Indices: 12196300--12196485 Score: 142
Period size: 40 Copynumber: 4.7 Consensus size: 39
12196290 AAATTCTTTT
* * *
12196300 GCGGCGTTGTTCAAAAAACGCCGCTAAAGATCGAGCAT-TA
1 GCGGCGTT-TTTAAAAAACGCCGCTAAAGGTCTA-CATATA
** * * * *
12196340 GTAGCATTTTTTAAAAAGCGCCGCTAAAGATCGAGCAT-TA
1 GCGGC-GTTTTTAAAAAACGCCGCTAAAGGTCTA-CATATA
* * * *
12196380 GCGGCGTTTTTTAAAAAACGTCGCTAAAGGTGTGCCTATA
1 GCGGCG-TTTTTAAAAAACGCCGCTAAAGGTCTACATATA
* * *
12196420 GCAGCGTTTCTTAAAAAATGCCGCTAAAGGTTTACATATA
1 GCGGCGTTT-TTAAAAAACGCCGCTAAAGGTCTACATATA
**
12196460 GCGGCGTTTTTAAAAAGTGCCGCTAA
1 GCGGCGTTTTTAAAAAACGCCGCTAA
12196486 TGCTTGTTCT
Statistics
Matches: 119, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
39 21 0.18
40 96 0.81
41 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (39 bp):
GCGGCGTTTTTAAAAAACGCCGCTAAAGGTCTACATATA
Found at i:12196501 original size:39 final size:39
Alignment explanation
Indices: 12196347--12196509 Score: 123
Period size: 40 Copynumber: 4.1 Consensus size: 39
12196337 TTAGTAGCAT
** * **
12196347 TTTTTAAAAAGCGCCGCTAAAGATCGAGCAT-TAGCGGCG
1 TTTTTAAAAAATGCCGCTAAAGCTTTA-CATATAGCGGCG
* * * * * * *
12196386 TTTTTTAAAAAACGTCGCTAAAGGTGTGCCTATAGCAGCG
1 -TTTTTAAAAAATGCCGCTAAAGCTTTACATATAGCGGCG
*
12196426 TTTCTTAAAAAATGCCGCTAAAGGTTTACATATAGCGGCG
1 TTT-TTAAAAAATGCCGCTAAAGCTTTACATATAGCGGCG
* * * *
12196466 TTTTTAAAAAGTGCCGCTAATGCTTGTTC-TTTAGCGGCG
1 TTTTTAAAAAATGCCGCTAAAGCTT-TACATATAGCGGCG
12196505 TTTTT
1 TTTTT
12196510 CATTCAAACG
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
39 38 0.38
40 63 0.62
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (39 bp):
TTTTTAAAAAATGCCGCTAAAGCTTTACATATAGCGGCG
Found at i:12212800 original size:46 final size:46
Alignment explanation
Indices: 12212540--12212940 Score: 298
Period size: 47 Copynumber: 8.6 Consensus size: 46
12212530 TTGCTGTTGC
12212540 CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGCGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATAT--G-GCTGATG
* ** * * * *
12212590 CATGTCCCGGACATGTCTTACACT--AACACA-ACTCTTAGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAAT-ATGGCTGATG
* * * * * *
12212634 CGTGTCCCTGACACGTCTTACACTGGCTTTCTCTGTCA-AT-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC--TCTC-ATAATATGGCTGATG
* * * * *
12212681 CATGTCCCAGACATGTCTTACTCTGGCACTCAT-CTCTGTGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATATG-GCTGATG
* *
12212727 CCCTGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCTGACG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATATGGCTGATG
* *
12212775 CATGTCCCTGACATGTCTTACACTGGCTCTCATAATATGGCTAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATATGGCTGATG
** * * * *
12212821 CATGTCCTTGACATGTCTTACACTAGCCCTCGT-CTGGAT-GCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAAT--ATGGCTGATG
* * ** *
12212867 CCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCAAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATATGGCTGATG
*
12212915 CATGTCCCAAACATGT-TTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
12212941 GCACAAATCA
Statistics
Matches: 278, Mismatches: 54, Indels: 43
0.74 0.14 0.11
Matches are distributed among these distances:
44 30 0.11
45 14 0.05
46 76 0.27
47 86 0.31
48 45 0.16
49 14 0.05
50 13 0.05
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATAATATGGCTGATG
Found at i:12212836 original size:140 final size:139
Alignment explanation
Indices: 12212678--12212940 Score: 357
Period size: 140 Copynumber: 1.9 Consensus size: 139
12212668 GTCAATGCCG
* * * * *
12212678 ATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTG-TGCCGATGCCCTGTCCCAGACAT
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTCATCT-GGATGCCGATGCCATGTCCCAAACAT
** * **
12212742 GGTCTTACACTGGCTCTCATAATATGGCTGACGCATGTCCCTGACATGTCTTACACTGGCTCTCA
65 GGTCTTACACTGGCTCTCATAATATGGCCAAAGCATGTCCCAAACATGT-TTACACTGGCTCTCA
12212807 TAATATGGCTA
129 TAATATGGCTA
** * * *
12212818 ATGCATGTCCTTGACATGTCTTACACTAGCCCTCGTCTGGATGCTGATGCCATGTCCCAAACATG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTGGATGCCGATGCCATGTCCCAAACATG
*
12212883 GTCTTACACTGGCTCTCATAATGTGGCCAAAGCATGTCCCAAACATGTTTACACTGGC
66 GTCTTACACTGGCTCTCATAATATGGCCAAAGCATGTCCCAAACATGTTTACACTGGC
12212941 GCACAAATCA
Statistics
Matches: 106, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
139 11 0.10
140 95 0.90
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (139 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTGGATGCCGATGCCATGTCCCAAACATG
GTCTTACACTGGCTCTCATAATATGGCCAAAGCATGTCCCAAACATGTTTACACTGGCTCTCATA
ATATGGCTA
Found at i:12223360 original size:13 final size:12
Alignment explanation
Indices: 12223331--12223363 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
12223321 AAAAATATAT
12223331 ATTTTTCAATAA
1 ATTTTTCAATAA
12223343 ATTTTTCAATAA
1 ATTTTTCAATAA
12223355 ATTTTTCAA
1 ATTTTTCAA
12223364 ATGTATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTTTTCAATAA
Found at i:12229008 original size:41 final size:41
Alignment explanation
Indices: 12228889--12229008 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
12228879 GTAAACTGCA
* * *
12228889 TCACACGACCATGTAGCT-GGCCATGTGGCAAACCATGTTGG
1 TCACACGATCATGT-GCTAGGCCATGTGGCAGACCGTGTTGG
* * *
12228930 TCACACAATCGTGTGGTAGGCCATGTGGCAGACCGTGTTGG
1 TCACACGATCATGTGCTAGGCCATGTGGCAGACCGTGTTGG
* *
12228971 TCACACGATCATGTGCTAGGCCATGTGGTAGATCGTGT
1 TCACACGATCATGTGCTAGGCCATGTGGCAGACCGTGT
12229009 AAGTTACACG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 2 0.03
41 65 0.97
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (41 bp):
TCACACGATCATGTGCTAGGCCATGTGGCAGACCGTGTTGG
Found at i:12229036 original size:29 final size:29
Alignment explanation
Indices: 12228991--12229066 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
12228981 ATGTGCTAGG
* * *
12228991 CCATGTGGTAGATCGTGTAAGTTACACGA
1 CCATGTGGTAGACCGTGTAAGTCACACAA
* *
12229020 CCGTGTGGTAGACCGTGTAGGTCACACAA
1 CCATGTGGTAGACCGTGTAAGTCACACAA
12229049 CCATGTGGTA-AGCCGTGT
1 CCATGTGGTAGA-CCGTGT
12229067 CGTAAACTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 1 0.03
29 39 0.98
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (29 bp):
CCATGTGGTAGACCGTGTAAGTCACACAA
Found at i:12229121 original size:41 final size:41
Alignment explanation
Indices: 12229020--12229129 Score: 121
Period size: 41 Copynumber: 2.7 Consensus size: 41
12229010 AGTTACACGA
* * * *
12229020 CCGTGTGGTAGACCGTGTAGGTCACACAACCATGTGGTAAG
1 CCGTGTGGTAGACTGTGTGGGTCACACGACCAAGTGGTAAG
* * *
12229061 CCGTGTCGTAAACTGTGTGGGTCACACGACCAAGTGGTAGG
1 CCGTGTGGTAGACTGTGTGGGTCACACGACCAAGTGGTAAG
* * * *
12229102 TCGTGTGGTAGATTATGTGGGCCACACG
1 CCGTGTGGTAGACTGTGTGGGTCACACG
12229130 GCCTAGTCAA
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.22, C:0.21, G:0.34, T:0.24
Consensus pattern (41 bp):
CCGTGTGGTAGACTGTGTGGGTCACACGACCAAGTGGTAAG
Found at i:12235820 original size:27 final size:27
Alignment explanation
Indices: 12235772--12235930 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
12235762 GCGAGGCTGC
* *
12235772 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
12235799 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
12235825 CAGATATATGTGGCAGATCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
12235852 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
12235879 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
12235906 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
12235931 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:12235865 original size:54 final size:54
Alignment explanation
Indices: 12235790--12235930 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
12235780 GTGACGAAGT
* *
12235790 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGATC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
12235844 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
12235898 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
12235931 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:12237555 original size:26 final size:26
Alignment explanation
Indices: 12237525--12237606 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
12237515 TGAAATGCCC
*
12237525 ATCATGGAACATTTAACTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12237551 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
12237577 ATCATGGAATATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
12237603 ATCA
1 ATCA
12237607 ATTTTTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:12242879 original size:27 final size:27
Alignment explanation
Indices: 12242849--12242988 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
12242839 GTGATGAAGT
12242849 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
*
12242876 CACCAGA-ACAGATATATGTGGTAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
12242903 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
* *
12242930 CACCA-AAACAGATATATGTGGAAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
12242957 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
12242984 CACCA
1 CACCA
12242989 AGACGCTTCC
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
26 11 0.12
27 79 0.83
28 5 0.05
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:12242909 original size:54 final size:54
Alignment explanation
Indices: 12242849--12242989 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
12242839 GTGATGAAGT
* * *
12242849 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAAAACAGATATATGTGGAAGAGC
*
12242903 CACCAGATCAGATAATCGTGGCATAGCCACCAAAACAGATATATGTGGAAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAAAACAGATATATGTGGAAGAGC
12242957 CACCAGATCAGATAATTGTGGCATAGCCACCAA
1 CACCAGATCAGATAATTGTGGCATAGCCACCAA
12242990 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAAAACAGATATATGTGGAAGAGC
Found at i:12244592 original size:26 final size:26
Alignment explanation
Indices: 12244562--12244643 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
12244552 TGAAATGCCC
12244562 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12244588 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
12244614 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12244640 ATCA
1 ATCA
12244644 ATTTTTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:12259543 original size:18 final size:19
Alignment explanation
Indices: 12259499--12259549 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
12259489 GTAACAGTGG
12259499 CAGTAATCAGTGCAGTAAC
1 CAGTAATCAGTGCAGTAAC
* *
12259518 CA-TGATCAATGCAGTAA-
1 CAGTAATCAGTGCAGTAAC
*
12259535 TAGTAATCAGTGCAG
1 CAGTAATCAGTGCAG
12259550 AATGCAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.88
19 2 0.08
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (19 bp):
CAGTAATCAGTGCAGTAAC
Found at i:12260026 original size:31 final size:27
Alignment explanation
Indices: 12259943--12260105 Score: 202
Period size: 27 Copynumber: 5.9 Consensus size: 27
12259933 TAGAGCAAAT
* *
12259943 CAGTCATTTTACCTTATAGGGGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTA
* *
12259970 CAATCATTTTACCCTACAGGAGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTA
12259997 CAGTCATTTTACCCTACATACAGGGGTATTA
1 CAGTCATTTTA-CC--C-TACAGGGGTATTA
12260028 CAGTCATTTTACCCTACAGGGGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTA
*
12260055 CAGTCATTTTACCCTA-TGAGGGTATTA
1 CAGTCATTTTACCCTACAG-GGGTATTA
* * *
12260082 TAGTCATTTTGCCCTATAGGGGTA
1 CAGTCATTTTACCCTACAGGGGTA
12260106 AAATCATCAT
Statistics
Matches: 120, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
26 1 0.01
27 89 0.74
28 4 0.03
30 3 0.03
31 23 0.19
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
CAGTCATTTTACCCTACAGGGGTATTA
Found at i:12260035 original size:58 final size:58
Alignment explanation
Indices: 12259960--12260070 Score: 204
Period size: 58 Copynumber: 1.9 Consensus size: 58
12259950 TTTACCTTAT
12259960 AGGGGTATTACAATCATTTTACCCTACAGGAGTATTACAGTCATTTTACCCTACATAC
1 AGGGGTATTACAATCATTTTACCCTACAGGAGTATTACAGTCATTTTACCCTACATAC
* *
12260018 AGGGGTATTACAGTCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTA
1 AGGGGTATTACAATCATTTTACCCTACAGGAGTATTACAGTCATTTTACCCTA
12260071 TGAGGGTATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (58 bp):
AGGGGTATTACAATCATTTTACCCTACAGGAGTATTACAGTCATTTTACCCTACATAC
Found at i:12260138 original size:27 final size:27
Alignment explanation
Indices: 12260108--12260184 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
12260098 TAGGGGTAAA
12260108 ATCATCATTTTATCACATAAGGGCAAT
1 ATCATCATTTTATCACATAAGGGCAAT
**
12260135 ATCATCATTTTATCATTTAAGGGCAAT
1 ATCATCATTTTATCACATAAGGGCAAT
*
12260162 ATCGTCATTTTATCACATAAGGG
1 ATCATCATTTTATCACATAAGGG
12260185 TTCAGGTGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (27 bp):
ATCATCATTTTATCACATAAGGGCAAT
Found at i:12269341 original size:47 final size:47
Alignment explanation
Indices: 12269282--12269403 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
12269272 GCATTGGCAC
*
12269282 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAG
12269329 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAG
* *
12269376 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
12269404 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAG
Found at i:12269446 original size:54 final size:54
Alignment explanation
Indices: 12269382--12269650 Score: 290
Period size: 54 Copynumber: 4.8 Consensus size: 54
12269372 TTAGTAAGAT
*
12269382 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* *
12269436 AAGGAAATCATGTAAGGCCATGCCAAGGCATGGCACTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* *
12269490 AAGGAAATCATGGTCCCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGG-AA--A---T--CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGC
** * *
12269553 AAAGG-ACCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * * *
12269606 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT
12269651 TAAAAAGGAA
Statistics
Matches: 186, Mismatches: 18, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
52 4 0.02
53 40 0.22
54 56 0.30
55 37 0.20
57 1 0.01
60 1 0.01
62 34 0.18
63 9 0.05
64 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:12269609 original size:116 final size:116
Alignment explanation
Indices: 12269390--12269610 Score: 338
Period size: 116 Copynumber: 1.9 Consensus size: 116
12269380 ATAAGGATAT
* * *
12269390 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGGCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACC
12269455 ATGCCAAGGCATGGCACTGATAAGTTCTATAAGGCAAGGAAATCATGGTCC
66 ATGCCAAGGCATGGCACTGATAAGTTCTATAAGGCAAGGAAATCATGGTCC
* *
12269506 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-ACCCATGTAAGA
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC-AAGGAAACCATGTAAGA
* * *
12269570 CCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGA
64 CCATGCCAAGGCATGGCACTGATAAGTTCTATAAGGCAAGGA
12269611 TACCACGTAA
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
116 47 0.49
117 44 0.46
118 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (116 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACC
ATGCCAAGGCATGGCACTGATAAGTTCTATAAGGCAAGGAAATCATGGTCC
Found at i:12281839 original size:43 final size:42
Alignment explanation
Indices: 12281699--12281862 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 42
12281689 TTTCATTATG
*
12281699 TGATT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTC
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TTT
* * * * * * *
12281741 TGTTTTACGTGTACGACCATGTCTAGGACATCGGTATCG-TATT
1 TG-ATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TT
*
12281784 TGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATGTT
1 TGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TT
*
12281827 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
12281863 TGTATATGTT
Statistics
Matches: 95, Mismatches: 19, Indels: 15
0.74 0.15 0.12
Matches are distributed among these distances:
42 30 0.32
43 38 0.40
44 27 0.28
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (42 bp):
TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT
Found at i:12288052 original size:46 final size:46
Alignment explanation
Indices: 12287985--12288156 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
12287975 TGTAACCCGC
*
12287985 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
12288031 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
12288081 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
12288124 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
12288157 TGGATACTCA
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.55
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:12288105 original size:93 final size:93
Alignment explanation
Indices: 12287992--12288161 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
12287982 CGCCCATAAG
* *
12287992 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
12288057 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
12288085 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
12288150 ACGAGTTTGGAT
66 ACGAGTTCGGAT
12288162 ACTCAACCAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:12288179 original size:46 final size:46
Alignment explanation
Indices: 12287988--12288179 Score: 153
Period size: 46 Copynumber: 4.2 Consensus size: 46
12287978 AACCCGCCCA
* * **** *
12287988 TAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATACTCAACATCC
*
12288033 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT-C
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATACTC-A---ACATCC
* * * * *
12288082 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATACTCAACATCC
*
12288126 ATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATACTCAACCATCC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATACTCAA-CATCC
12288174 T-AGTGA
1 TAAGTGA
12288180 CATGTCACTT
Statistics
Matches: 117, Mismatches: 18, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 3 0.03
46 68 0.58
47 30 0.26
48 8 0.07
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATACTCAACATCC
Found at i:12292437 original size:18 final size:18
Alignment explanation
Indices: 12292409--12292472 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
12292399 GAACAATTAT
* *
12292409 TTATTTAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* * *
12292427 TTATTCGGTAACAATCAA
1 TTATTCAGTAATAATCAG
*
12292445 TTATTCAATAATAATCAG
1 TTATTCAGTAATAATCAG
12292463 TTATTCAGTA
1 TTATTCAGTA
12292473 TCAATCAATT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:12292440 original size:36 final size:36
Alignment explanation
Indices: 12292375--12292482 Score: 110
Period size: 36 Copynumber: 3.0 Consensus size: 36
12292365 CAATCAGTAA
* * * * * *
12292375 TATTCATTAACAATCAGTCAATCAG-AACAATTATT
1 TATTCAATAATAATCAGTTATTCAGTAACAATCAAT
* * * *
12292410 TATTTAGTAATAGTCAGTTATTCGGTAACAATCAAT
1 TATTCAATAATAATCAGTTATTCAGTAACAATCAAT
*
12292446 TATTCAATAATAATCAGTTATTCAGTATCAATCAAT
1 TATTCAATAATAATCAGTTATTCAGTAACAATCAAT
12292482 T
1 T
12292483 GATTGGTTAT
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
35 18 0.31
36 40 0.69
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (36 bp):
TATTCAATAATAATCAGTTATTCAGTAACAATCAAT
Found at i:12292555 original size:19 final size:19
Alignment explanation
Indices: 12292427--12292556 Score: 63
Period size: 18 Copynumber: 6.7 Consensus size: 19
12292417 TAATAGTCAG
*
12292427 TTATTCGGTAACAATC-AA
1 TTATTCAGTAACAATCAAA
* * *
12292445 TTATTCAATAATAATC-AG
1 TTATTCAGTAACAATCAAA
*
12292463 TTATTCAGTATCAATCAATTGA
1 TTATTCAGTAACAATCAA---A
* *
12292485 TTGGTTATCCAGTAACAGTC-AA
1 ----TTATTCAGTAACAATCAAA
* *
12292507 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCAAA
*
12292526 -TATAT-AGTAACAATTAAA
1 TTAT-TCAGTAACAATCAAA
12292544 TTATTCAGTAACA
1 TTATTCAGTAACA
12292557 GTCGATCTTT
Statistics
Matches: 82, Mismatches: 18, Indels: 23
0.67 0.15 0.19
Matches are distributed among these distances:
18 54 0.66
19 13 0.16
22 1 0.01
25 1 0.01
26 13 0.16
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:12292745 original size:47 final size:47
Alignment explanation
Indices: 12292687--12292790 Score: 156
Period size: 47 Copynumber: 2.2 Consensus size: 47
12292677 TAACAATAAT
*
12292687 AGTAGCAGTACGGTACACAGAGTACCTCATCGGAACAAATCC-AGAAC
1 AGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA-AAC
* * *
12292734 AGTAACAGTACGGTACATAGAGTACCTCATTGGAACAAATTCGAAAC
1 AGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAAC
12292781 AGTAACAGTA
1 AGTAACAGTA
12292791 ACGGCAACAG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 51 0.98
48 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.18
Consensus pattern (47 bp):
AGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAAC
Found at i:12292992 original size:16 final size:16
Alignment explanation
Indices: 12292963--12292996 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12292953 TAATTCACTT
12292963 TTCAATTTTCAATTAA
1 TTCAATTTTCAATTAA
12292979 TTCATATTTT-AATTAA
1 TTCA-ATTTTCAATTAA
12292995 TT
1 TT
12292997 AACTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCAATTTTCAATTAA
Found at i:12297634 original size:37 final size:37
Alignment explanation
Indices: 12297591--12297667 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
12297581 AATAGTCTTC
12297591 AAGATGCTTTGTCAGTTCGATTTGAAATGAAAATTTT
1 AAGATGCTTTGTCAGTTCGATTTGAAATGAAAATTTT
12297628 AAGATGCTTTGTCAGTTCGATTTGAAATGAAAATTTT
1 AAGATGCTTTGTCAGTTCGATTTGAAATGAAAATTTT
12297665 AAG
1 AAG
12297668 TTAAGCTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (37 bp):
AAGATGCTTTGTCAGTTCGATTTGAAATGAAAATTTT
Found at i:12300436 original size:15 final size:16
Alignment explanation
Indices: 12300410--12300439 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12300400 ATAAACCTAT
12300410 ATTTTTATATTTTAAA
1 ATTTTTATATTTTAAA
12300426 ATTTTTA-ATTTTAA
1 ATTTTTATATTTTAA
12300440 TTTAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTTATATTTTAAA
Found at i:12300455 original size:21 final size:22
Alignment explanation
Indices: 12300412--12300456 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
12300402 AAACCTATAT
* **
12300412 TTTTATATTTTAAAATTTTTAA
1 TTTTATATTTAAAAATTAATAA
12300434 TTTTA-ATTTAAAAATTAATAA
1 TTTTATATTTAAAAATTAATAA
12300455 TT
1 TT
12300457 ACTGTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTATATTTAAAAATTAATAA
Found at i:12305304 original size:33 final size:33
Alignment explanation
Indices: 12305243--12305337 Score: 106
Period size: 33 Copynumber: 3.0 Consensus size: 33
12305233 AAATATGTTG
* **
12305243 AATAATAATAATACTT-AT-ATC-TTTAATAAT
1 AATAATAATAATATTTAATAATCATACAATAAT
12305273 AATAATAATAATATTTAATAATCATACAATAAT
1 AATAATAATAATATTTAATAATCATACAATAAT
* * * *
12305306 AATACTTATACTATTTAATAATAATACAATAA
1 AATAATAATAATATTTAATAATCATACAATAA
12305338 AAAAATATGT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
30 15 0.27
31 2 0.04
32 3 0.05
33 35 0.64
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (33 bp):
AATAATAATAATATTTAATAATCATACAATAAT
Found at i:12306200 original size:17 final size:17
Alignment explanation
Indices: 12306178--12306211 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12306168 ATTTCGAAAT
12306178 TGAGAGAAACTAAAGTG
1 TGAGAGAAACTAAAGTG
12306195 TGAGAGAAACTAAAGTG
1 TGAGAGAAACTAAAGTG
12306212 ACATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.29, T:0.18
Consensus pattern (17 bp):
TGAGAGAAACTAAAGTG
Found at i:12317495 original size:23 final size:23
Alignment explanation
Indices: 12317465--12317514 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
12317455 CAAAACTACA
12317465 TTGTGCAAGTAGTCATAAAGTGC
1 TTGTGCAAGTAGTCATAAAGTGC
12317488 TTGTGCAAGTAGTCATAAAGTGC
1 TTGTGCAAGTAGTCATAAAGTGC
12317511 TTGT
1 TTGT
12317515 AAGCTAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (23 bp):
TTGTGCAAGTAGTCATAAAGTGC
Found at i:12323403 original size:17 final size:19
Alignment explanation
Indices: 12323366--12323403 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
12323356 TACTTTTCTC
12323366 AAGGTATCGATATATTTCCT
1 AAGGTATCGA-ATATTTCCT
12323386 AAGGTATCG-ATA-TTCCT
1 AAGGTATCGAATATTTCCT
12323403 A
1 A
12323404 CACCAACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
20 9 0.50
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
AAGGTATCGAATATTTCCT
Found at i:12324268 original size:20 final size:20
Alignment explanation
Indices: 12324240--12324278 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12324230 GGACCAATTC
* *
12324240 GGAATAAATCAAAACATTTA
1 GGAAAAAATCAAAAAATTTA
*
12324260 GGAAAAAATTAAAAAATTT
1 GGAAAAAATCAAAAAATTT
12324279 CAAGTTAGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (20 bp):
GGAAAAAATCAAAAAATTTA
Found at i:12327088 original size:20 final size:20
Alignment explanation
Indices: 12327059--12327098 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
12327049 ATTGTACAGG
*
12327059 ATTTGTACTTCGATGCCTCT
1 ATTTGCACTTCGATGCCTCT
* *
12327079 ATTTGCACTTTGGTGCCTCT
1 ATTTGCACTTCGATGCCTCT
12327099 GTATACACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.45
Consensus pattern (20 bp):
ATTTGCACTTCGATGCCTCT
Found at i:12330016 original size:21 final size:21
Alignment explanation
Indices: 12329992--12330037 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
12329982 CAGAAGCTCG
* *
12329992 TAAGAGCTGAATGAAAACCCA
1 TAAGAGCTGAACGAAAACCAA
* *
12330013 TAAGAGTTGAACGGAAACCAA
1 TAAGAGCTGAACGAAAACCAA
12330034 TAAG
1 TAAG
12330038 GTTAAACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (21 bp):
TAAGAGCTGAACGAAAACCAA
Done.